Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcctttacagaaatgcttctactttcaattgttatatctgttcgcagctggctattctgtggcgacgccactgcttaacttcgatcctccatctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA

Basic information

species Zea mays
transcript GRMZM2G134708_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134708_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g44340.1 (Oryza sativa), 3'ss of exon 2
--atcctttacagaaatgcttcta-ctttcaattgttatatctgttcgcagctggctattctgtggcgacgccactgcttaacttcgatcctccatctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA
  |  |  | ||   || | || | |  || |||  |   |   |    |   | ||| |   |    |      |  ||    |   |  | | |  | |||||||| || || ||||| ||||| |||||||||||||||||||| |||||||
gtaaaccatccatccatccatccatccatcgattccttcctgaatgaatactggactagtaattcctaattattttttttcctcttcgtgtttc-tgctgcagGTGGCTCCCTACGAGCGTCCTGCTCTCAGCAAGGGATACCTCTTTCCTCAGA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|211139780|gb|FL086553.1|FL086553
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139782|gb|FL086555.1|FL086555
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|149089132|gb|EE178315.2|EE178315
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|71445023|gb|DR826073.1|DR826073
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|84980717|gb|DW531066.1|DW531066
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|32830690|gb|CD970368.1|CD970368
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|71422582|gb|DR805773.1|DR805773
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|50327427|gb|CO522553.1|CO522553
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|33099224|gb|CF059184.1|CF059184
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGA-ACCTATTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|76931161|gb|DV172672.1|DV172672
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|78077167|gb|DV505601.1|DV505601
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139774|gb|FL086547.1|FL086547
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148931363|gb|EC874265.2|EC874265
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|149111140|gb|EE294635.2|EE294635
EST:     CCAAGCAGGGCGACAACCCCGGCGAGCTCGCCATCATCTCCAAAGAACCA                         GAGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAC
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|71439293|gb|DR820343.1|DR820343
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|32838952|gb|CD978633.1|CD978633
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCCTCTTCCCTCA
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACC-TCTTCCCTCA
EST: gi|71298889|gb|DR785439.1|DR785439
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|32836612|gb|CD976290.1|CD976290
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|33099029|gb|CF058989.1|CF058989
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|94478914|gb|EB707872.1|EB707872
EST:     CCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148951661|gb|EC897406.2|EC897406
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138836|gb|FL086537.1|FL086537
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148939718|gb|EC884396.2|EC884396
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139777|gb|FL086550.1|FL086550
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|32836750|gb|CD976428.1|CD976428
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|88751027|gb|DY535168.1|DY535168
EST:     CCAAGCAGGGCGTCAACCCCGGAGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAGGGGATACCTCTTCCCTCAA
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138837|gb|FL086538.1|FL086538
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138840|gb|FL086541.1|FL086541
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138844|gb|FL086545.1|FL086545
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|149111386|gb|EE294890.2|EE294890
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139778|gb|FL086551.1|FL086551
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCMTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139786|gb|FL086559.1|FL086559
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138839|gb|FL086540.1|FL086540
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|149084652|gb|EE174137.2|EE174137
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138843|gb|FL086544.1|FL086544
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148941238|gb|EC886132.2|EC886132
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148936977|gb|EC881144.2|EC881144
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138838|gb|FL086539.1|FL086539
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148940672|gb|EC885484.2|EC885484
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|84980996|gb|DW531345.1|DW531345
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139779|gb|FL086552.1|FL086552
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCACCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCA
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCC-CCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCA
EST: gi|148937253|gb|EC881434.2|EC881434
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148932994|gb|EE285869.2|EE285869
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139781|gb|FL086554.1|FL086554
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|33467502|gb|CF244551.1|CF244551
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|148934201|gb|EC878222.2|EC878222
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139776|gb|FL086549.1|FL086549
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139784|gb|FL086557.1|FL086557
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139787|gb|FL086560.1|FL086560
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGC-ATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211139775|gb|FL086548.1|FL086548
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138842|gb|FL086543.1|FL086543
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCATGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
EST: gi|211138845|gb|FL086546.1|FL086546
EST:     CCAAGCAGGGCGTCAACCCCGGCGAGCTCGC-ATCATCTCCAAGGAACCA                         GTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG
genomic: CCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 45 (upstream exon), 48 (downstream exon)
Score: 63

GGGTACGCGGCGAGGGAGTTCGCCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 762

GGGTACGCGGCGAGGGAGTTCGCCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1236

GGGTACGCGGCGAGGGAGTTCGCCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 410

GGGTACGCGGCGAGGGAGTTCGCCAAGCAGGGCGTCAACCCCGGCGAGCTCGCCATCATCTCCAAGGAACCAgtacgtatac ... catctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagctggctattctgtggcgacgccactgcttaacttcgatcctccatctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA
                            gcttaac  putative branch site (score: 410)
                                        tcctccatctttc  putative PPT
                              ttaactt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcctttacagaaatgcttctactttcaattgttatatctgttcgcagctggctattctgtggcgacgccactgcttaacttcgatcctccatctttcagGTGGCCCCTTATGAGCGCCCTGCACTCAGCAAGGGATACCTCTTCCCTCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - -acagaaa
- - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - - - - gcagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctta